4Q94 Peptide Binding Protein date Apr 29, 2014
title Human Rprd1b Cid In Complex With A Rpb1-Ctd Derived Ser2 Phosphorylated Peptide
authors Z.Ni, C.Xu, W.Tempel, M.El Bakkouri, P.Loppnau, C.Bountra, C.H.Arr A.M.Edwards, J.Min, J.F.Greenblatt, Structural Genomics Consor (Sgc)
compound source
Molecule: Regulation Of Nuclear Pre-Mrna Domain-Containing 1b;
Chain: A, B
Synonym: Cell Cycle-Related And Expression-Elevated Protein
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Rprd1b, C20orf77, Crept
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_strain: Bl21-V2r-Prare2
Expression_system_plasmid: Pet15-Mhl

Molecule: Rpb1-Ctd
Chain: C, D
Engineered: Yes

Synthetic: Yes
Other_details: Synthetic Peptide
symmetry Space Group: P 21 21 21
R_factor 0.178 R_Free 0.221
crystal
cell
length a length b length c angle alpha angle beta angle gamma
39.286 70.448 108.859 90.00 90.00 90.00
method X-Ray Diffractionresolution 1.85 Å
ligand NH2, SEP, SO4, UNX enzyme
Primary referenceRPRD1A and RPRD1B are human RNA polymerase II C-terminal domain scaffolds for Ser5 dephosphorylation., Ni Z, Xu C, Guo X, Hunter GO, Kuznetsova OV, Tempel W, Marcon E, Zhong G, Guo H, Kuo WH, Li J, Young P, Olsen JB, Wan C, Loppnau P, El Bakkouri M, Senisterra GA, He H, Huang H, Sidhu SS, Emili A, Murphy S, Mosley AL, Arrowsmith CH, Min J, Greenblatt JF, Nat Struct Mol Biol. 2014 Jul 6. doi: 10.1038/nsmb.2853. PMID:24997600
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (54 Kb) [Save to disk]
  • Biological Unit Coordinates (4q94.pdb1.gz) 25 Kb
  • Biological Unit Coordinates (4q94.pdb2.gz) 25 Kb
  • Biological Unit Coordinates (4q94.pdb3.gz) 49 Kb
  • LPC: Ligand-Protein Contacts for 4Q94
  • CSU: Contacts of Structural Units for 4Q94
  • Structure Factors (2183 Kb)
  • Retrieve 4Q94 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 4Q94 from S2C, [Save to disk]
  • Re-refined 4q94 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 4Q94 in 3D
  • Proteopedia, because life has more than 2D.
  • On Jmol, a nice Rasmol like molecule viewer. This is good for easiest viewing of basic structure.
  • On FirstGlance, an excellent tool for a guided tour on the structure components, by E. Martz.
  • Visual 3D analysis of 4Q94
  • Cartoon representation from PDB Cartoon
  • Ramachandran plot from PDBSum
  • Structure-derived information
  • Dipole moment, from Dipole Server at Weizmann Institute
  • Crystal Contacts, from CryCo at Weizmann Institute
  • 3D motif for 4Q94, from MSDmotif at EBI
  • Fold representative 4q94 from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [4q94_C] [4q94_A] [4q94] [4q94_B] [4q94_D]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Domain found in 4Q94: [RPR ] by SMART
  • Other resources with information on 4Q94
  • Community annotation for 4Q94 at PDBWiki (http://pdbwiki.org)

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